Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1672665 original size:32 final size:32
Alignment explanation
Indices: 1672608--1672669 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1672598 AAAATTTCCA
***
1672608 AATGTATCGATACAAAGATCCATGTATCGAAC
1 AATGTATCGATACAAAGAAAAATGTATCGAAC
*
1672640 AATGTATCGATACACAGAAAAATGTATCGA
1 AATGTATCGATACAAAGAAAAATGTATCGA
1672670 TACATTTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (32 bp):
AATGTATCGATACAAAGAAAAATGTATCGAAC
Found at i:1672717 original size:19 final size:18
Alignment explanation
Indices: 1672693--1672762 Score: 87
Period size: 19 Copynumber: 4.1 Consensus size: 18
1672683 CAGTAGCTAA
1672693 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1672712 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1672727 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1672744 TTATGTATCGATACAAAC
1 TTATGTATCGATACAAAC
1672762 T
1 T
1672763 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 6 0.13
19 25 0.56
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1672733 original size:13 final size:13
Alignment explanation
Indices: 1672715--1672739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1672705 ACAATACTTA
1672715 TGTATCGATACAT
1 TGTATCGATACAT
1672728 TGTATCGATACA
1 TGTATCGATACA
1672740 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1672737 original size:32 final size:32
Alignment explanation
Indices: 1672696--1672758 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1672686 TAGCTAATTA
*
1672696 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1672728 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1672759 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1672822 original size:21 final size:21
Alignment explanation
Indices: 1672796--1672872 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1672786 GTTGAGACCC
* *
1672796 TGTATCGATACATTTGTA-TAA
1 TGTATCGATACA-TTCTACAAA
*
1672817 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1672838 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
1672859 TGTATCGAGACATT
1 TGTATCGATACATT
1672873 TGGAATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1679141 original size:27 final size:27
Alignment explanation
Indices: 1679106--1679180 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
1679096 ATTTTTTACA
1679106 ATCA-GGGATACTCCAACCCCGTTAATC
1 ATCAGGGGATACTCCAACCCCGTT-ATC
*
1679133 ATC-GGGGATACTCCAACCCCGTTATT
1 ATCAGGGGATACTCCAACCCCGTTATC
*
1679159 TTCGAGGGGATACTCCAACCCC
1 ATC-AGGGGATACTCCAACCCC
1679181 TCATTTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 4 0.09
27 22 0.51
28 17 0.40
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (27 bp):
ATCAGGGGATACTCCAACCCCGTTATC
Found at i:1679307 original size:79 final size:80
Alignment explanation
Indices: 1679133--1679308 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 80
1679123 CCCGTTAATC
* * *
1679133 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTCATTTTATTTCTAAAA
1 ATCGGGGATAATCCAACCCCCTTATTTTCGAGGGGATACTCCAACCCCTCATTTTATTTCAAAAA
* * * *
1679198 CATCAATTTTTCATA
66 CACCAATTCTCCACA
* **
1679213 ATCGGGGATAATCCAACCCCCTTATTTTCGAGGGGATACTCGAA-CCCTGGTTTTATTTCAAAAA
1 ATCGGGGATAATCCAACCCCCTTATTTTCGAGGGGATACTCCAACCCCTCATTTTATTTCAAAAA
1679277 CACCAATTCTCCACA
66 CACCAATTCTCCACA
*
1679292 ATCGGGGATATTCCAAC
1 ATCGGGGATAATCCAAC
1679309 TCCGATTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 44 0.52
80 41 0.48
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (80 bp):
ATCGGGGATAATCCAACCCCCTTATTTTCGAGGGGATACTCCAACCCCTCATTTTATTTCAAAAA
CACCAATTCTCCACA
Found at i:1679321 original size:51 final size:51
Alignment explanation
Indices: 1679246--1679359 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
1679236 ATTTTCGAGG
* * **
1679246 GGATACTCGAAC-CCTGGTTTTA-TTTCAAAAACACCAATTCTCCACAATCGG
1 GGATACTCCAACTCC-GATTTTATTTTC-AAAACACCAATTCTCCACAATCAA
* * * *
1679297 GGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAA
1 GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTCTCCACAATCAA
1679348 GGATACTCCAAC
1 GGATACTCCAAC
1679360 CTCATTATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 46 0.88
52 6 0.12
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTCTCCACAATCAA
Found at i:1679380 original size:28 final size:28
Alignment explanation
Indices: 1679348--1679414 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1679338 TCACAATCAA
* * **
1679348 GGATACTCCAACCTCATTATTTCATCGG
1 GGATACTCCAACCCCATTACTTCAGAGG
*
1679376 GGATACTCCAACCCCATTACTTCCGAGG
1 GGATACTCCAACCCCATTACTTCAGAGG
1679404 GGATACTCCAA
1 GGATACTCCAA
1679415 TCCCGGCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCATTACTTCAGAGG
Found at i:1679451 original size:237 final size:237
Alignment explanation
Indices: 1679058--1679490 Score: 611
Period size: 237 Copynumber: 1.8 Consensus size: 237
1679048 TTTTCATCTC
* * *
1679058 GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTTACAATCAGGGATACTCCAAC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAAC
* * * * *
1679123 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTCATTTT
66 CCCATTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGCA-TTT
* * *
1679188 ATTTCTAAAACATCAATTTTTCATAATCGGGGATAATCCAACCCCCTTATTTTCGA-GGGGATAC
130 ATTTCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTC-ACGGGGATAC
1679252 TCGAACCCTGGTTTTATTTCAAAAACACCAATTCTCCACAATCG
194 TCGAACCCTGGTTTTATTTCAAAAACACCAATTCTCCACAATCG
* * *
1679296 GGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTTCACAATCAAGGATACTCCAAC
1 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAAC
* * *
1679360 CTCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAATCCCGGC-TT
66 CCCATTA-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAA-CCCCGCATT
* ** * *
1679424 TATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTATTATTTTCACGGGGATAC
129 TATTTCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTCACGGGGATAC
1679489 TC
194 TC
1679491 AAATCCCGAC
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
236 1 0.01
237 97 0.57
238 68 0.40
239 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (237 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAAC
CCCATTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGCATTTA
TTTCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTCACGGGGATACTC
GAACCCTGGTTTTATTTCAAAAACACCAATTCTCCACAATCG
Found at i:1679530 original size:79 final size:79
Alignment explanation
Indices: 1679371--1679548 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 79
1679361 TCATTATTTC
* * * *
1679371 ATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAATCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCTATTACTTCCGAGGGGATACTCAAATCCCGACTTTATTTCCAAAAC
1679436 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * ***
1679450 ATCGGGGATACTCCAACCCTATTATTTTC-ACGGGGATACTCAAATCCCGACTTTATTTTTGAAA
1 ATCGGGGATACTCCAACCCTATTACTTCCGA-GGGGATACTCAAATCCCGACTTTATTTCCAAAA
1679514 CATCT-ATTT-TCTATA
65 CAT-TGATTTCTC-ATA
* *
1679529 ATCAGGGATACTTCAACCCT
1 ATCGGGGATACTCCAACCCT
1679549 TGTCTTTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.04
79 81 0.95
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTATTACTTCCGAGGGGATACTCAAATCCCGACTTTATTTCCAAAAC
ATTGATTTCTCATA
Found at i:1679596 original size:237 final size:235
Alignment explanation
Indices: 1679058--1679627 Score: 582
Period size: 237 Copynumber: 2.4 Consensus size: 235
1679048 TTTTCATCTC
* * * *
1679058 GGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTTACAATCAGGGATACTCCAAC
1 GGGATATTCCAACTC-CATTTTATTTTC-AAAACA-CAATTTTTCACAATCAGGGATACTCCAAC
* * * * *
1679123 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTCATTT
63 CCCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGCA-TT
* * *
1679187 TATTTCTAAAACATCAATTTTTCATAATCGGGGATAATCCAACCCCCTTATTTTCGAGGGGATAC
127 TATTTCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTCGAGGGGATAC
* ** *
1679252 TCGAACCCTGGTTTTATTTCAAAAACACCAATTCTCCACAATCG
192 TCAAACCCTGACTTTATTTCAAAAACACCAATTCTCCACAATCA
*
1679296 GGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATCAAGGATACTCCAACC
1 GGGATATTCCAACTCC-ATTTTATTTTCAAAACAC-AATTTTTCACAATCAGGGATACTCCAACC
* * *
1679361 TCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAATCCCGGC-TTT
64 CCGTTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAA-CCCCGCATTT
* ** * *
1679425 ATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCTATTATTTTC-ACGGGGATAC
128 ATTTCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTCGA-GGGGATAC
*** * * * * *
1679489 TCAAATCCC-GACTTTATTTTTGAAACATCTATTTTCTATAATCA
192 TCAAA-CCCTGACTTTATTTCAAAAACACCAATTCTCCACAATCA
* * ** *
1679533 GGGATACTT-CAAC-CC-TTGTCTTTTTTCTAAATCATCAATTTTTCACAATTGGGGATTCTCCA
1 GGGATA-TTCCAACTCCATT-T-TATTTTC-AAAACA-CAATTTTTCACAATCAGGGATACTCCA
*
1679595 ACCCCGTTATCTT--TGAGGGGATACTCCAACCCC
61 ACCCCGTTAT-TTCAT-CGGGGATACTCCAACCCC
1679628 GTTATTATCT
Statistics
Matches: 277, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
234 2 0.01
235 1 0.00
236 11 0.04
237 184 0.66
238 75 0.27
239 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (235 bp):
GGGATATTCCAACTCCATTTTATTTTCAAAACACAATTTTTCACAATCAGGGATACTCCAACCCC
GTTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGCATTTATT
TCCAAAACATCAATTTCTCATAATCGGGGATAATCCAACCCCATTATTTTCGAGGGGATACTCAA
ACCCTGACTTTATTTCAAAAACACCAATTCTCCACAATCA
Found at i:1684359 original size:25 final size:25
Alignment explanation
Indices: 1684331--1684380 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
1684321 CACCCCCTTT
1684331 GAGCCTGAAAAAATCATTCTTTCAA
1 GAGCCTGAAAAAATCATTCTTTCAA
1684356 GAGCCTGAAAAAATCATTCTTTCAA
1 GAGCCTGAAAAAATCATTCTTTCAA
1684381 AACCCTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (25 bp):
GAGCCTGAAAAAATCATTCTTTCAA
Found at i:1684387 original size:25 final size:25
Alignment explanation
Indices: 1684334--1684388 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1684324 CCCCTTTGAG
* *
1684334 CCTGAAAAAATCATTCTTTCAAGAG
1 CCTGAAAAAATCATTCTTTCAAAAC
1684359 CCTGAAAAAATCATTCTTTCAAAAC
1 CCTGAAAAAATCATTCTTTCAAAAC
1684384 CCTGA
1 CCTGA
1684389 TCAAGGATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (25 bp):
CCTGAAAAAATCATTCTTTCAAAAC
Found at i:1685863 original size:61 final size:60
Alignment explanation
Indices: 1685768--1686640 Score: 612
Period size: 61 Copynumber: 14.5 Consensus size: 60
1685758 TAGCCCTTCC
*
1685768 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
*
1685829 AGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
* ***
1685890 AGTCCTTAAAGAGCAGGACATTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGAC-GCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
1685952 AGTCCTCAAAAAGCAGGACGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1686012 CAGTCCTCAAAGAGCAGGACG-C-----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1686067 CAGTCTTCAAAGAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCA--TTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * *
1686128 CCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTT
1 ---AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TT
* * * * *
1686192 AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTT--AGTCCTCAAAGAGTAGGAT-GC-C
1 AGTCCTCAAAGAGCAGGACGC-CT-T--TTT---CTTTTAAAGCCCACACA-AGTTGG-TGGCAC
*
1686253 TTTT
57 CTTT
* * * ** * ** * * *** * *** ** **
1686257 AAAGCCCACACAAGTTGGTGGCACTTCC-TAGTC-CTCAAAGAGTAGGACGCCCTCTCCTTTCAC
1 --AGTCCTCA-AAG-AGCAGG-AC-GCCTTTTTCTTTTAAAGCCCA-CAC-AAGT-TGGTGGCA-
1686320 CCTTT
56 CCTTT
* * * *
1686325 AGTCCTCAAAAAGCATGACG-C-----CTTTTAAAGCCTACATAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * **
1686379 AGTCCTCAAAGAGTAGGACGCC--TTTC----AAAGCCCACACGAGTTGGTGGCACCTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
1686433 AGTCCTCAAAGTGCAGGACGCCTTTTTTTTTTAAAGCCCACATAAGCTGGTGGCA-TTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
*
1686492 CCAGTCCTCAAAGAGCAGGACGCC----TC--TTAAAGCCCACACAAGTTGGTGGCACATTT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
1686548 CA-TCCTCAAAGAGCAGGACACATTTTT-TTTTCAAAGCCCATACGAGTTGGTGGCACTTTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCAC-CTTT
* *
1686609 AGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT
1686641 CTCCTTTGTC
Statistics
Matches: 647, Mismatches: 102, Indels: 125
0.74 0.12 0.14
Matches are distributed among these distances:
54 83 0.13
55 81 0.13
56 9 0.01
57 3 0.00
58 9 0.01
59 3 0.00
60 82 0.13
61 194 0.30
62 58 0.09
63 60 0.09
64 6 0.01
65 8 0.01
66 18 0.03
67 13 0.02
68 13 0.02
69 3 0.00
70 3 0.00
71 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
Found at i:1686017 original size:123 final size:121
Alignment explanation
Indices: 1685762--1686212 Score: 596
Period size: 123 Copynumber: 3.7 Consensus size: 121
1685752 CTCTTTTAGC
* *
1685762 CCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
1 CCTTTCAGTCCTCAAAGAGCAGGAC-CTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
* *
1685827 TTAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
64 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1685885 CCTTT-AGTCCTTAAAGAGCAGGACATTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 CCTTTCAGTCCTCAAAGAGCAGGAC---CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
1685949 TTTAGTCCTCAAAAAGCAGGACGCC-TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
63 TTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
1686007 CCTTTCAGTCCTCAAAGAGCAGGA-C----GCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * *
1686067 CAGTCTTCAAAGAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCA
66 -AGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1686125 --TTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 CCTTT--CAGTCCTCAAAGAGCAGGAC-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1686188 TCTTAGTCCTCAAAGAGCAGGACGC
63 T-TTAGTCCTCAAAGAGCAGGACGC
1686213 TCTCTCCTTT
Statistics
Matches: 291, Mismatches: 22, Indels: 29
0.85 0.06 0.08
Matches are distributed among these distances:
115 33 0.11
116 22 0.08
117 4 0.01
118 46 0.16
120 1 0.00
122 55 0.19
123 69 0.24
124 59 0.20
125 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (121 bp):
CCTTTCAGTCCTCAAAGAGCAGGACCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1686174 original size:179 final size:179
Alignment explanation
Indices: 1685764--1686215 Score: 664
Period size: 179 Copynumber: 2.5 Consensus size: 179
1685754 CTTTTAGCCC
1685764 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT
*
1685829 AGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
65 AGTCCTCAAAGAGCAGGACG-C----TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
** * * *
1685894 CTTAAAGAGCAGGACATTTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
125 CTTAAAGAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCA-CT
* *
1685950 TT--AGTCCTCAAAAAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-
1686013 AGTCCTCAAAGAGCAGGACGC-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGT-CTTC
65 AGTCCTCAAAGAGCAGGACGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTT-
1686075 AAAGAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCA-T
128 AAAGAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCACT
* *
1686126 TTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCT
1 TT-CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-T
1686191 TAGTCCTCAAAGAGCAGGACGCTCT
64 TAGTCCTCAAAGAGCAGGACGCTCT
1686216 CTCCTTTCAC
Statistics
Matches: 246, Mismatches: 12, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
176 3 0.01
177 31 0.13
178 53 0.22
179 75 0.30
180 4 0.02
183 29 0.12
184 49 0.20
186 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (179 bp):
TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTA
GTCCTCAAAGAGCAGGACGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTTAAA
GAGCAGGACACCTTTTTCCCTTTTAAAGCCCACACAACTTGGTGGCACT
Found at i:1686298 original size:94 final size:93
Alignment explanation
Indices: 1686157--1686400 Score: 382
Period size: 94 Copynumber: 2.6 Consensus size: 93
1686147 GACGCCTTCT
* *
1686157 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTTAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-TAGTCCTCAAAGAGTAGGACGCCCTCTCCTT
* * *
1686222 TCACCCTTTAGTCCTCAAAGAGTAGGATG
65 TCACCCTTTAGTCCTCAAAAAGCAGGACG
1686251 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCCCTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGTAGGACGCCCTCTCCTT
*
1686316 TCACCCTTTAGTCCTCAAAAAGCATGACG
65 TCACCCTTTAGTCCTCAAAAAGCAGGACG
* *
1686345 CCTTTTAAAGCCTACATAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGTAGGACGCC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGTAGGACGCC
1686401 TTTCAAAGCC
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
93 23 0.16
94 113 0.81
95 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGTAGGACGCCCTCTCCTTT
CACCCTTTAGTCCTCAAAAAGCAGGACG
Found at i:1686402 original size:54 final size:54
Alignment explanation
Indices: 1686320--1686634 Score: 283
Period size: 54 Copynumber: 5.6 Consensus size: 54
1686310 CTCCTTTCAC
* * * *
1686320 CCTTTAGTCCTCAAAAAGCATGACGCCTTTTAAAGCCTACATAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1686374 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
1686428 CCTCCAGTCCTCAAAGTGCAGGACGCCTTTTTTTTTTAAAGCCCACATAAGCTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCC------TTTTAAAGCCCACACAAGTTGGTGGCA
* *
1686488 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
1686543 CATTTCA-TCCTCAAAGAGCAGGACACATTTTTTTTTCAAAGCCCATACGAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
1686603 CTTTTTAGTCCTCAAAGAGCAGGACGTCTTTT
1 C-CTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1686635 CCTTTTCTCC
Statistics
Matches: 212, Mismatches: 32, Indels: 32
0.77 0.12 0.12
Matches are distributed among these distances:
54 88 0.42
55 26 0.12
56 7 0.03
59 4 0.02
60 46 0.22
61 41 0.19
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1686524 original size:115 final size:114
Alignment explanation
Indices: 1686347--1686633 Score: 373
Period size: 115 Copynumber: 2.5 Consensus size: 114
1686337 GCATGACGCC
* * *
1686347 TTTTAAAGCCTACATAAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCC
1 TTTTAAAGCCCACATAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
* * * *
1686412 ACACGAGTTGGTGGCAC-CTCCAGTCCTCAAAGTGCAGGACGCCTTTTTT
66 ACACAAGTTGGTGGCACACTCCA-TCCTCAAAGAGCAGGACACATTTTTT
*
1686461 TTTTAAAGCCCACATAAGCTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-AAAG
1 TTTTAAAGCCCACATAAGTTGGTGGCACTTTT--AGTCCTCAAAGAGCAGGACGCCT-TTCAAAG
* *
1686524 CCCACACAAGTTGGTGGCACATTTCATCCTCAAAGAGCAGGACACATTTTTT
63 CCCACACAAGTTGGTGGCACACTCCATCCTCAAAGAGCAGGACACATTTTTT
* * ** *
1686576 TTTCAAAGCCCATACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGTCTTT
1 TTTTAAAGCCCACATAAGTTGGTGGCAC-TTTTAGTCCTCAAAGAGCAGGACGCCTTT
1686634 TCCTTTTCTC
Statistics
Matches: 151, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
113 3 0.02
114 27 0.18
115 112 0.74
116 5 0.03
117 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (114 bp):
TTTTAAAGCCCACATAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
ACACAAGTTGGTGGCACACTCCATCCTCAAAGAGCAGGACACATTTTTT
Found at i:1686713 original size:45 final size:45
Alignment explanation
Indices: 1686636--1686863 Score: 161
Period size: 45 Copynumber: 5.2 Consensus size: 45
1686626 ACGTCTTTTC
* * * *
1686636 CTTTTCTCCTTTGTCCTCAAAAAAC-GGTACACACTTCATTCCCTT
1 CTTTCCTCTTTTGTCCTCAAAGAGCAGG-ACACACTTCATTCCCTT
* * *
1686681 CTTTCCTCTTTTGTCCTCAAAAAGCAGGACACACTTTATTTTCC-T
1 CTTTCCTCTTTTGTCCTCAAAGAGCAGGACACACTTCA-TTCCCTT
** *
1686726 C-TT--TCTTTTGTCCTCAAAGAGCAGGATGCATTTCATT---TT
1 CTTTCCTCTTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTT
* * * * * *
1686765 CCTTTTCTCCTTTGTCCTCAAAGAGTAGGACGCTCTTCATTTCCTT
1 -CTTTCCTCTTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTT
* * *
1686811 CTTTTCC-CTTCTAGTCCTCAAAGAGCAGGACACATTTCGCTTCCCTT
1 C-TTTCCTCTT-TTGTCCTCAAAGAGCAGGACACACTTC-ATTCCCTT
1686858 -TTTCCT
1 CTTTCCT
1686864 TTGTCCTTGA
Statistics
Matches: 145, Mismatches: 24, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 4 0.03
42 27 0.19
43 29 0.20
44 2 0.01
45 41 0.28
46 34 0.23
47 6 0.04
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (45 bp):
CTTTCCTCTTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTT
Found at i:1686832 original size:46 final size:43
Alignment explanation
Indices: 1686610--1686870 Score: 197
Period size: 42 Copynumber: 6.1 Consensus size: 43
1686600 GCACTTTTTA
1686610 GTCCTCAAAGAGCAGGACG----TC-TTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* * * * * *
1686648 GTCCTCAAAAAAC-GGTACACACTTCATTCCCTT-CTTTCCTCTTTT
1 GTCCTCAAAGAGCAGG-ACGCATTTCATT---TTCCTTTTCTCCTTT
* *
1686693 GTCCTCAAAAAGCAGGACACACTTT-ATTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTCATTTTCCT-TTTCTCCTTT
*
1686735 GTCCTCAAAGAGCAGGATGCATTTCATTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
* *
1686778 GTCCTCAAAGAGTAGGACGC-TCTTCA-TTTCCTTCTTTTCCCTTCT
1 GTCCTCAAAGAGCAGGACGCAT-TTCATTTTCCTT-TTCT-CCTT-T
* ** *
1686823 AGTCCTCAAAGAGCAGGACACATTTCGCTTCCCTTTT-TCCTTT
1 -GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
1686866 GTCCT
1 GTCCT
1686871 TGAAAAATGG
Statistics
Matches: 182, Mismatches: 18, Indels: 42
0.75 0.07 0.17
Matches are distributed among these distances:
37 2 0.01
38 13 0.07
41 8 0.04
42 46 0.25
43 33 0.18
44 12 0.07
45 32 0.18
46 29 0.16
47 7 0.04
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTT
Found at i:1687591 original size:19 final size:19
Alignment explanation
Indices: 1687567--1687619 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
1687557 CATTTTTGTC
1687567 CAAATGTATCGATACCTTA
1 CAAATGTATCGATACCTTA
1687586 CAAATGTATCGATACCTTA
1 CAAATGTATCGATACCTTA
1687605 CAAATGTATCGATAC
1 CAAATGTATCGATAC
1687620 AAGGTCCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (19 bp):
CAAATGTATCGATACCTTA
Found at i:1687779 original size:13 final size:13
Alignment explanation
Indices: 1687761--1687786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1687751 CATTTTTCTG
1687761 TGTATCGATACAT
1 TGTATCGATACAT
1687774 TGTATCGATACAT
1 TGTATCGATACAT
1687787 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1687798 original size:20 final size:20
Alignment explanation
Indices: 1687773--1687827 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1687763 TATCGATACA
*
1687773 TTGTATCGATACATCGATCT
1 TTGTATTGATACATCGATCT
1687793 TTGTATTGATACATCGATCT
1 TTGTATTGATACATCGATCT
1687813 TTGTATTGATACATC
1 TTGTATTGATACATC
1687828 TAGGAAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATTGATACATCGATCT
Found at i:1687798 original size:33 final size:33
Alignment explanation
Indices: 1687741--1687806 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1687731 GCCAAGGAAA
***
1687741 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATCGATCTGTGTATCGATACAT
* *
1687774 TGTATCGATACATCGATCTTTGTATTGATACAT
1 TGTATCGATACATCGATCTGTGTATCGATACAT
1687807 CGATCTTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATCGATCTGTGTATCGATACAT
Found at i:1690304 original size:79 final size:79
Alignment explanation
Indices: 1690216--1690390 Score: 244
Period size: 79 Copynumber: 2.2 Consensus size: 79
1690206 CCCGTTAATC
* * *
1690216 ATCGTGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCTGGTTTT-TTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCC-GGTTTTATTTCAAAAA
* * * *
1690280 CATCAATTTTTCATA
65 CACCAATTCTCCACA
* *
1690295 ATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCGAACCCCGGTTTTATTTCAAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCCGGTTTTATTTCAAAAAC
1690360 ACCAATTCTCCACA
66 ACCAATTCTCCACA
*
1690374 ATCGGGGATATTCCAAC
1 ATCGGGGATACTCCAAC
1690391 TCCGATTTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 6 0.07
79 79 0.93
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCGAACCCCGGTTTTATTTCAAAAAC
ACCAATTCTCCACA
Found at i:1690403 original size:51 final size:51
Alignment explanation
Indices: 1690326--1690442 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
1690316 TTATTTTTGA
* *
1690326 GGGGATACTCGAACCCCGGTTTTATTTCAAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTCTCCACAATC
* * * * * *
1690377 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTCTCCACAATC
*
1690428 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1690443 TCATTATTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAAACACCAATTCTCCACAATC
Found at i:1690461 original size:28 final size:28
Alignment explanation
Indices: 1690425--1690500 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
1690415 ATTTTTCACA
* * *
1690425 ATCGAGGATACTCCAACCTCATTATTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
1690453 ATCGGGGATACTCCAACCCCATTACTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
***
1690481 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
1690501 GGCTTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTACTTC
Found at i:1690559 original size:237 final size:237
Alignment explanation
Indices: 1690138--1690572 Score: 651
Period size: 237 Copynumber: 1.8 Consensus size: 237
1690128 ATTTTTCATC
*
1690138 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCC
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCC
* * * * * *
1690203 AACCCCGTTAATCATCGTGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCTGGT
66 AACCCCATTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGGT
* * * * * *
1690268 TTTTTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTTTGA-GGGGAT
131 TTATTTCCAAAACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTA-TTTTCACGGGGAT
1690332 ACTCGAACCCCGGTTTTATTTCAAAAACACCAATTCTCCACAA
195 ACTCGAACCCCGGTTTTATTTCAAAAACACCAATTCTCCACAA
*
1690375 TCGGGGATATTCCAACTCCGATTTTATTTCC-AAAACACTAATTTTTCACAATCGAGGATACTCC
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCC
* *
1690439 AACCTCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCC-GG
66 AACCCCATTA-ATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGG
* **
1690503 CTTTATTTCCAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTCACGGGGA
130 -TTTATTTCCAAAACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTCACGGGGA
1690568 TACTC
194 TACTC
1690573 CAATTCCGAC
Statistics
Matches: 176, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
236 47 0.27
237 129 0.73
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (237 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGAGGATACTCC
AACCCCATTAATCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGGT
TTATTTCCAAAACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTCACGGGGATA
CTCGAACCCCGGTTTTATTTCAAAAACACCAATTCTCCACAA
Found at i:1690566 original size:107 final size:107
Alignment explanation
Indices: 1690377--1690575 Score: 269
Period size: 107 Copynumber: 1.9 Consensus size: 107
1690367 CTCCACAATC
* * * *
1690377 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
1690442 CTCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGA
66 CTCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGA
* * * * *
1690484 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATC-AGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCGA-GGATACTCCAA
1690548 CC-CTATTATTTTCA-CGGGGATACTCCAA
65 CCTC-ATTA-TTTCATCGGGGATACTCCAA
1690576 TTCCGACTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
106 2 0.03
107 73 0.91
108 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
CTCATTATTTCATCGGGGATACTCCAACCCCATTACTTCCGA
Found at i:1690641 original size:237 final size:236
Alignment explanation
Indices: 1690148--1690708 Score: 618
Period size: 237 Copynumber: 2.4 Consensus size: 236
1690138 TCGGGGATAC
*
1690148 TCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTA
1 TCCAACTCCGATCTTATTTCC-AAAACACTAATTTTTCACAATCGGGGATACTCCAA-CCCGTTA
* * * * * * * *
1690213 -ATCATCGTGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCCTGGTTTTTTTCTA
64 TTTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGGTTTATTTCCA
* * * * *
1690277 AAACATCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTTTGAGGGGATACTCGAACCC
129 AAACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTTCAGGGGATACTCCAACCC
** * *
1690342 CGGTTTTATTTCAAAAACACCAATTCTCCACAATCGGGGATAT
194 CGACTTTATTTCAAAAACACCAATTCTCCACAATCGGAGACAT
* * *
1690385 TCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCATTAT
1 TCCAACTCCGATCTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACC-CGTTAT
1690450 TTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCC-GGCTTTATTTCCA
65 TTCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGG-TTTATTTCCA
* ** **
1690514 AAATATTGATTTCTCATAATCAGGGATACTCCAACCCTATTA-TTTTCACGGGGATACTCCAATT
129 AAACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTTCA-GGGGATACTCCAACC
*** * * * * *
1690578 CCGACTTTATTTTTGAAACATCTATTTTCTATAATCGGAGACACT
193 CCGACTTTATTTCAAAAACACCAATTCTCCACAATCGGAGACA-T
* * * *
1690623 T-CAAC-CCTTG-TCTTATTTCTAAATCA-TCAATTTTTCATAATCGGGGATTCTCCAACCCGTT
1 TCCAACTCC--GATCTTATTTCCAAAACACT-AATTTTTCACAATCGGGGATACTCCAACCCGTT
1690684 ATCTTCGA--GGGGATACTCCAACCCC
63 AT-TTC-ATCGGGGATACTCCAACCCC
1690709 GTTATTATCT
Statistics
Matches: 275, Mismatches: 39, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
235 2 0.01
236 70 0.25
237 199 0.72
238 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (236 bp):
TCCAACTCCGATCTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCGTTATT
TCATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCTGGTTTATTTCCAAA
ACATCAATTTCTCATAATCAGGGATACTCCAACCCTATTATTTTTCAGGGGATACTCCAACCCCG
ACTTTATTTCAAAAACACCAATTCTCCACAATCGGAGACAT
Found at i:1692185 original size:79 final size:78
Alignment explanation
Indices: 1692069--1692529 Score: 480
Period size: 79 Copynumber: 5.8 Consensus size: 78
1692059 ATAAAAAATG
* * *
1692069 GGGTTGAAGTATCCCATTAAAAATAA-AGGAGTTGGAGTATCCCCGATTGTGAAAAATCGATATT
1 GGGTTGGAGTATCCC-TTAGAAATAACAGG-GTTGGAGTATCCCCGATGGTGAAAAATCGATATT
** *
1692133 TTGGAAATAAAACCA
64 TTAAAAATAGAACCA
* ** * * * *
1692148 GGGTTAGAGTAGTCGATTTGAAATAACAGGGTTGGAGTATCCCCAATGGTAAAAAATTGATATTT
1 GGGTTGGAGTA-TCCCTTAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTT
*
1692213 TTAAAATAGAACCA
65 TAAAAATAGAACCA
* * * * *
1692227 GGGTTGGAGTATCTCTTCGAAAATAACTGGGTTGGAGTATCCCCGACGGTGAAAAATCAATATTT
1 GGGTTGGAGTATCCCTTAG-AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTT
1692292 TAAAAATAGAACC-
65 TAAAAATAGAACCA
* * * * * *
1692305 GAGGTTAGAGTATCCCCTTAGAAATAACAGGGTTGGAGTATTCCTGTTAGTGGAAAATCGATATT
1 G-GGTTGGAGTAT-CCCTTAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
* *
1692370 TTAAAAATAGAATCG
64 TTAAAAATAGAACCA
* * * *
1692385 GGGTTGGAGTATCCCTTCAGAAATAACAGGGTTAGAGTATCTCCAATGGTG-AAAATCAATATTT
1 GGGTTGGAGTATCCCTT-AGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTT
**
1692449 TAAAAATAGAACTG
65 TAAAAATAGAACCA
** *
1692463 GGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGAAGTATCCCCGATGGTGAAGAAAATC-ATAT
1 GGGTTGGAGTAT-CCCTTAGAAATAACAGGGTTGGAGTATCCCCGATGGTG-A-AAAATCGATAT
1692527 TTT
63 TTT
1692530 GGAAAAAAAT
Statistics
Matches: 318, Mismatches: 53, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
78 75 0.24
79 219 0.69
80 18 0.06
81 6 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTTAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTT
AAAAATAGAACCA
Found at i:1698288 original size:22 final size:22
Alignment explanation
Indices: 1698260--1698303 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1698250 GGCCCACTCT
*
1698260 TTTTTTTTATTGATGTTCATTC
1 TTTTTTTTATTGATATTCATTC
* *
1698282 TTTTTTTTCTTGCTATTCATTC
1 TTTTTTTTATTGATATTCATTC
1698304 CCATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTTTTTTATTGATATTCATTC
Found at i:1704991 original size:13 final size:13
Alignment explanation
Indices: 1704973--1704998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1704963 TACAGCAAGT
1704973 ATGTATCGATACA
1 ATGTATCGATACA
1704986 ATGTATCGATACA
1 ATGTATCGATACA
1704999 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1705519 original size:34 final size:35
Alignment explanation
Indices: 1705456--1705522 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1705446 CTAAGTGATT
1705456 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1705492 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1705523 TCTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1708633 original size:13 final size:13
Alignment explanation
Indices: 1708615--1708639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1708605 TTTTCCAGAT
1708615 TGTATCGATACAA
1 TGTATCGATACAA
1708628 TGTATCGATACA
1 TGTATCGATACA
1708640 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1710349 original size:13 final size:13
Alignment explanation
Indices: 1710331--1710356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1710321 TACAGCAAGT
1710331 ATGTATCGATACA
1 ATGTATCGATACA
1710344 ATGTATCGATACA
1 ATGTATCGATACA
1710357 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1710877 original size:34 final size:35
Alignment explanation
Indices: 1710814--1710880 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1710804 CTAAGTGATT
1710814 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1710850 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1710881 TCTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1714551 original size:8 final size:8
Alignment explanation
Indices: 1714538--1714615 Score: 86
Period size: 8 Copynumber: 9.6 Consensus size: 8
1714528 AGGGCGCCCA
1714538 AAAAAAAC
1 AAAAAAAC
1714546 AAAAAAAC
1 AAAAAAAC
1714554 AAAAAAAC
1 AAAAAAAC
*
1714562 AAAAAAAAAT
1 --AAAAAAAC
1714572 AAAAAAAC
1 AAAAAAAC
1714580 AAAAAAAC
1 AAAAAAAC
* **
1714588 CAAGGAA-
1 AAAAAAAC
*
1714595 AAAATAAC
1 AAAAAAAC
1714603 AAAAAAAC
1 AAAAAAAC
1714611 AAAAA
1 AAAAA
1714616 GGGGTCCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
7 4 0.07
8 47 0.81
10 7 0.12
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1714598 original size:1 final size:1
Alignment explanation
Indices: 1714537--1714586 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
1714527 AAGGGCGCCC
* * * * *
1714537 AAAAAAAACAAAAAAACAAAAAAACAAAAAAAAATAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1714587 CCAAGGAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:1715860 original size:28 final size:28
Alignment explanation
Indices: 1715826--1716097 Score: 330
Period size: 28 Copynumber: 9.5 Consensus size: 28
1715816 CGTTCATCTC
*
1715826 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1715854 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
1715882 TTCAAAGCCCACGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CA-TCCT
* * *
1715912 TTCAAACCCCACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1715940 TCCAAAGCCCACAAG-CTAGTGGCACCCT
1 TTCAAAGCCCACAAGTC-AGTGGCATCCT
*
1715968 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
1715996 TTCAAAGCCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
1716025 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
1716053 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCCT
1716085 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1716098 CAAGTTAGTG
Statistics
Matches: 213, Mismatches: 22, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.00
28 131 0.62
29 31 0.15
30 38 0.18
31 3 0.01
32 9 0.04
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:1715971 original size:86 final size:85
Alignment explanation
Indices: 1715826--1716110 Score: 367
Period size: 86 Copynumber: 3.3 Consensus size: 85
1715816 CGTTCATCTC
* * *
1715826 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAACCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
1715891 CACGAGTCGGTGGTAACTCTT
66 CACAAGTCGGTGG-AACTCTT
* * *
1715912 TTCAAACCCCACAAGTCAGTGGTACCCTTCCAAAGCCCACAAG-CTAGTGGCACCCTTTCAAAGC
1 TTCAAACCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC-AGTGGCACCCTTTCAAAGC
* * *
1715976 CCACAAGTCAGTGGCAC-CCT
65 CCACAAGTCGGTGGAACTCTT
* *
1715996 TTCAAAGCCCACAAGTCAGTGGCATTCCTTTCAAAGCCCACAAGTCAGTGACACCCTTTCAAAGC
1 TTCAAACCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-
1716061 CCACACAAGTCGGTGGCAACTCTT
64 CC-CACAAGTCGGTGG-AACTCTT
*
1716085 TTCAAAGCCCACACAAGTTAGTGGCA
1 TTCAAA-CCC-CACAAGTCAGTGGCA
1716111 CATTTTTAAA
Statistics
Matches: 170, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
84 24 0.14
85 37 0.22
86 71 0.42
87 12 0.07
88 2 0.01
89 8 0.05
90 2 0.01
91 14 0.08
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (85 bp):
TTCAAACCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCGGTGGAACTCTT
Found at i:1716245 original size:45 final size:46
Alignment explanation
Indices: 1716175--1716295 Score: 118
Period size: 49 Copynumber: 2.6 Consensus size: 46
1716165 CTGTCTGACA
* * *
1716175 TCGCTAGCATTGAATCAACATATTGGCACCTTT-ATTAGCCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
* * * *
1716220 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCTAATG
1 TCGCTAGCCTTGAATCAGCACATTGG--CACCTTT-CATTAGCCCAATG
* **
1716269 TCGCTAGCCTTAAATTGGCACATTGGC
1 TCGCTAGCCTTGAATCAGCACATTGGC
1716296 GCTCCTCTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
45 22 0.36
47 7 0.11
49 32 0.52
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.31
Consensus pattern (46 bp):
TCGCTAGCCTTGAATCAGCACATTGGCACCTTTCATTAGCCCAATG
Found at i:1717065 original size:40 final size:41
Alignment explanation
Indices: 1717002--1717080 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
1716992 AAGCACCCAG
1717002 ATGTATCGATACAATTTTCAATGTATCGATACA-TCTATGA
1 ATGTATCGATACAATTTTCAATGTATCGATACATTCTATGA
*
1717042 ATGTATCGATAC-ATTCTTTAATGTATCGATACATTCTAT
1 ATGTATCGATACAATT-TTCAATGTATCGATACATTCTAT
1717081 CCTTTTACCC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 3 0.08
40 28 0.78
41 5 0.14
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (41 bp):
ATGTATCGATACAATTTTCAATGTATCGATACATTCTATGA
Found at i:1717077 original size:20 final size:20
Alignment explanation
Indices: 1717002--1717078 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
1716992 AAGCACCCAG
1717002 ATGTATCGATACAATT-TTCA
1 ATGTATCGATAC-ATTCTTCA
*
1717022 ATGTATCGATACA-TCTATGA
1 ATGTATCGATACATTCT-TCA
*
1717042 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTCA
1717062 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
1717079 ATCCTTTTAC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 46 0.88
21 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1721335 original size:20 final size:20
Alignment explanation
Indices: 1721294--1721346 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
1721284 CAAAAACCCA
* *
1721294 AAATGTATCGATATAATGAT
1 AAATGTATTGATACAATGAT
*
1721314 AAATGTATTGATACAATTAT
1 AAATGTATTGATACAATGAT
1721334 AAGTATGTATTGA
1 AA--ATGTATTGA
1721347 CACATTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 19 0.68
22 9 0.32
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATGTATTGATACAATGAT
Found at i:1721385 original size:21 final size:20
Alignment explanation
Indices: 1721337--1721387 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1721327 CAATTATAAG
*
1721337 TATGTATTGACACATTTACT
1 TATGTATCGACACATTTACT
*
1721357 TATGTATCGATACATTTACT
1 TATGTATCGACACATTTACT
*
1721377 ATTTGTATCGA
1 -TATGTATCGA
1721388 AACAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (20 bp):
TATGTATCGACACATTTACT
Found at i:1722147 original size:61 final size:61
Alignment explanation
Indices: 1721993--1722443 Score: 550
Period size: 61 Copynumber: 7.4 Consensus size: 61
1721983 AAAAGAAAAT
* * * *
1721993 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTAAACA-AATAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGA-GAAGGC
* * *
1722055 GTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGATAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
* * * * * * * *
1722116 ATCCTACTATTTGAGGACTGAAAGGTGCCACCAACTTGTATAGGCTTTGAAAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
* * * *
1722177 GCCCTGCTCTTTGAGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
* * * * *
1722238 GCCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA-AA-GT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
* * **
1722297 GTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGCTTTAAAAAAAGAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
* * * *
1722358 GTCTTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
*
1722419 GTCCTACTCTTTGAGGACTAAAAGG
1 GTCCTGCTCTTTGAGGACTAAAAGG
1722444 ATAAAAGGTA
Statistics
Matches: 341, Mismatches: 43, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
58 4 0.01
59 45 0.13
60 4 0.01
61 235 0.69
62 53 0.16
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
Found at i:1722382 original size:181 final size:182
Alignment explanation
Indices: 1721995--1722443 Score: 584
Period size: 181 Copynumber: 2.5 Consensus size: 182
1721985 AAGAAAATGT
* * * *
1721995 CCTGCTCTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTAAACA-AATAAAGGTGTCC
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGA-GAAGGTGTCC
* *
1722059 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGATAAGGCATCCTACT
64 TACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGATAAGG-ATCCTACT
* * ** *
1722124 ATTTGAGGACTGAAAGGTGCCACCAACTTGTATAGGCTTTGAAAGGAGAAGGTGC
128 ATTTGAGGACTAAAAGGTGCCACCAACTTGTATAGGCTTTAAAAAAAGAAGGCGC
* *
1722179 CCTGCTCTTTGAGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGCCCTA
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTA
* * * * * *
1722244 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-GA-AAGTG-TCTTGCTC
66 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGGATAAG-GATCCTACTA
* *
1722306 TTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GAGCTTTAAAAAAAGAAGGCGT
129 TTTGAGGACTAAAAGGTGCCACCAACTTGTATAG-GCTTTAAAAAAAGAAGGCGC
* * * *
1722360 CTTGCTCTTTGAGGACTGAAAGGTTCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCGTCCTA
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTA
1722425 CTCTTTGAGGACTAAAAGG
66 CTCTTTGAGGACTAAAAGG
1722444 ATAAAAGGTA
Statistics
Matches: 232, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
180 1 0.00
181 126 0.54
182 3 0.01
183 51 0.22
184 51 0.22
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (182 bp):
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTA
CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGATAAGGATCCTACTATT
TGAGGACTAAAAGGTGCCACCAACTTGTATAGGCTTTAAAAAAAGAAGGCGC
Found at i:1725855 original size:13 final size:13
Alignment explanation
Indices: 1725837--1725893 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1725827 TTCAACAATT
1725837 TGTATCGATACAA
1 TGTATCGATACAA
*
1725850 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
1725865 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1725882 TGTATCGATACA
1 TGTATCGATACA
1725894 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 21 0.58
15 3 0.08
17 3 0.08
19 9 0.25
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1725877 original size:32 final size:32
Alignment explanation
Indices: 1725836--1725920 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
1725826 TTTCAACAAT
*
1725836 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1725868 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
1725900 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
1725921 CTACGAAGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1725906 original size:19 final size:18
Alignment explanation
Indices: 1725850--1725912 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1725840 ATCGATACAA
*
1725850 TGTATCGATGCATAAGTGT
1 TGTATCGATACATAAGT-T
1725869 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1725882 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1725901 TGTATCGATACA
1 TGTATCGATACA
1725913 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1725982 original size:13 final size:13
Alignment explanation
Indices: 1725964--1725990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1725954 CATTACTCAA
1725964 TGTATCGATACAT
1 TGTATCGATACAT
1725977 TGTATCGATACAT
1 TGTATCGATACAT
1725990 T
1 T
1725991 TCATCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1725986 original size:33 final size:34
Alignment explanation
Indices: 1725944--1726008 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
1725934 GCCAAGGAAA
1725944 TGTATCGATACATTAC-TCAATGTATCGATACAT
1 TGTATCGATACATTACATCAATGTATCGATACAT
* **
1725977 TGTATCGATACATTTCATCTTTGTATCGATAC
1 TGTATCGATACATTACATCAATGTATCGATAC
1726009 CTTTGGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (34 bp):
TGTATCGATACATTACATCAATGTATCGATACAT
Found at i:1737096 original size:4 final size:4
Alignment explanation
Indices: 1737077--1737112 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
1737067 TGACTGTACA
1737077 AAAT AAAAT AAAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AA
1737113 GTACCTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 22 0.71
5 9 0.29
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:1739322 original size:79 final size:78
Alignment explanation
Indices: 1739174--1739652 Score: 383
Period size: 79 Copynumber: 6.1 Consensus size: 78
1739164 TTTTGAAGAT
* * *
1739174 AAAA-AACAGGGTTGAAGTATCCTCGATGGTGAAAAAAT-GATATTTTAAAAATAAAACCAGGTT
1 AAAATAACA-GGTTGAAGTATCCTCGATGGTG-AAAAATCGATATTTTAAAAATAGAACCGGGGT
* * **
1739237 TAGAGTATCATCTTT
64 TGGAGTATCACCTCA
* * * *
1739252 AAAATAACTGGATT-AGAGTATCCTCGATGGTAAAAAAATCGATATTTTAAAAATTGAATC-GGG
1 AAAATAACAGG-TTGA-AGTATCCTCGATGGT-GAAAAATCGATATTTTAAAAATAGAACCGGGG
*
1739315 TTGGAGTAT-ACCCTTA
63 TTGGAGTATCA-CCTCA
** * *
1739331 AAAATAA-AGGGGTTGAAGTAT-CTACGACAGTGAAAAATTGATATTTTAAAAATAGAACCGAGG
1 AAAATAACA--GGTTGAAGTATCCT-CGATGGTGAAAAATCGATATTTTAAAAATAGAACCGGGG
1739394 TTGGAGTATTC-CCTCA
63 TTGGAGTA-TCACCTCA
** * *
1739410 AAAATAACCAGGTT-AGAGTAT-CTCCGATAATAGAAAAA-CAATATTTTAAAAATAGAATCGGG
1 AAAATAA-CAGGTTGA-AGTATCCT-CGATGGT-GAAAAATCGATATTTTAAAAATAGAACCGGG
* * *
1739472 GTTAGAGTATCCCCTCG
62 GTTGGAGTATCACCTCA
*
1739489 AAAATAACAAGGTTGAAGTATCC-CGATGGTGGAAAATCGATATTTTAAAAATAGAACCGGGGTT
1 AAAATAAC-AGGTTGAAGTATCCTCGATGGTGAAAAATCGATATTTTAAAAATAGAACCGGGGTT
* *
1739553 -AAGGTATC-CTCTCG
65 GGA-GTATCAC-CTCA
* * * * * *
1739567 AAAATAATAAGGTTGTAGTATCCTCGATGGTGGAAAATAGATATTTTAAAAATAGAACTGGAGTT
1 AAAATAA-CAGGTTGAAGTATCCTCGATGGTGAAAAATCGATATTTTAAAAATAGAACCGGGGTT
** *
1739632 GGAGTATTTCCTCG
65 GGAGTATCACCTCA
1739646 AAAATAA
1 AAAATAA
1739653 TAGGGGTAGA
Statistics
Matches: 333, Mismatches: 40, Indels: 55
0.78 0.09 0.13
Matches are distributed among these distances:
77 7 0.02
78 97 0.29
79 197 0.59
80 31 0.09
81 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (78 bp):
AAAATAACAGGTTGAAGTATCCTCGATGGTGAAAAATCGATATTTTAAAAATAGAACCGGGGTTG
GAGTATCACCTCA
Found at i:1739381 original size:78 final size:77
Alignment explanation
Indices: 1739285--1739693 Score: 339
Period size: 79 Copynumber: 5.2 Consensus size: 77
1739275 TCGATGGTAA
* * * *
1739285 AAAAATCGATATTTTAAAAATTGAATCGGGTTGGAGTATACCCTTAAAAATAAAGGGGTTGAAGT
1 AAAAATCGATATTTTAAAAATAGAACCGGGTTGGAGTATACCCTCAAAAATAAA-AGGTTGAAGT
* *
1739350 ATCTACGACAGTG
65 ATCTCCGATAGTG
* * *
1739363 AAAAATTGATATTTTAAAAATAGAACCGAGGTTGGAGTATTCCCTCAAAAATAACCAGGTT-AGA
1 AAAAATCGATATTTTAAAAATAGAACCG-GGTTGGAGTATACCCTCAAAAATAA-AAGGTTGA-A
*
1739427 GTATCTCCGATAATAG
63 GTATCTCCGATAGT-G
* * * * *
1739443 AAAAA-CAATATTTTAAAAATAGAATCGGGGTTAGAGTATCCCCTCGAAAATAACAAGGTTGAAG
1 AAAAATCGATATTTTAAAAATAGAA-CCGGGTTGGAGTATACCCTCAAAAATAA-AAGGTTGAAG
*
1739507 TATC-CCGATGGTG
64 TATCTCCGATAGTG
* * * *
1739520 GAAAATCGATATTTTAAAAATAGAACCGGGGTT-AAGGTAT-CCTCTCGAAAATAATAAGGTTGT
1 AAAAATCGATATTTTAAAAATAGAACC-GGGTTGGA-GTATACC-CTCAAAAATAA-AAGGTTGA
*
1739583 AGTATC-CTCGATGGTG
62 AGTATCTC-CGATAGTG
* * * ** * * *
1739599 GAAAATAGATATTTTAAAAATAGAACTGGAGTTGGAGTATTTCCTCGAAAATAATAGG-GGTAGA
1 AAAAATCGATATTTTAAAAATAGAACCGG-GTTGGAGTATACCCTCAAAAATAAAAGGTTG-A-A
*
1739663 GTATCTCCGATGGTG
63 GTATCTCCGATAGTG
1739678 AAGAAAATC-ATATTTT
1 -A-AAAATCGATATTTT
1739694 GGAAAAAAAA
Statistics
Matches: 278, Mismatches: 34, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
77 10 0.04
78 89 0.32
79 155 0.56
80 19 0.07
81 5 0.02
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (77 bp):
AAAAATCGATATTTTAAAAATAGAACCGGGTTGGAGTATACCCTCAAAAATAAAAGGTTGAAGTA
TCTCCGATAGTG
Found at i:1739580 original size:157 final size:158
Alignment explanation
Indices: 1739174--1739693 Score: 509
Period size: 157 Copynumber: 3.3 Consensus size: 158
1739164 TTTTGAAGAT
*
1739174 AAAA-AACAGGGTTGAAGTATC-CTCGATGGTGAAAAAAT-GATATTTTAAAAATAAAACC-AGG
1 AAAATAACAGGGTTGAAGTATCTC-CGATGGTGAAAAAATCGATATTTTAAAAATAGAACCGAGG
* ** *
1739235 TTTAGAGTATCATCTTTAAAATAACT-GGATTAGAGTATCCTCGATGGTAAAAAAATCGATATTT
65 -TTAGAGTATCCTCTCAAAAATAA-TAGG-TTAGAGTATCCTCGATGGTAGAAAAA-CGATATTT
* **
1739299 TAAAAATTGAATC-GGGTTGGAGTATACCCTTA
126 TAAAAATAGAATCGGGGTTGGAGTATACCCTCG
* ** *
1739331 AAAATAA-AGGGGTTGAAGTATCTACGACAGTG-AAAAATTGATATTTTAAAAATAGAACCGAGG
1 AAAATAACA-GGGTTGAAGTATCTCCGATGGTGAAAAAATCGATATTTTAAAAATAGAACCGAGG
* * ** *
1739394 TTGGAGTATTCC-CTCAAAAATAACCAGGTTAGAGTAT-CTCCGATAATAGAAAAACAATATTTT
65 TTAGAGTA-TCCTCTCAAAAATAA-TAGGTTAGAGTATCCT-CGATGGTAGAAAAACGATATTTT
* *
1739457 AAAAATAGAATCGGGGTTAGAGTATCCCCTCG
127 AAAAATAGAATCGGGGTTGGAGTATACCCTCG
* * *
1739489 AAAATAACAAGGTTGAAGTATC-CCGATGGTG-GAAAATCGATATTTTAAAAATAGAACCGGGGT
1 AAAATAACAGGGTTGAAGTATCTCCGATGGTGAAAAAATCGATATTTTAAAAATAGAACCGAGGT
* *
1739552 TA-AGGTATCCTCTCGAAAATAATAAGGTT-GTAGTATCCTCGATGGTGGAAAATA-GATATTTT
66 TAGA-GTATCCTCTCAAAAATAAT-AGGTTAG-AGTATCCTCGATGGTAGAAAA-ACGATATTTT
* **
1739614 AAAAATAGAA-CTGGAGTTGGAGTATTTCCTCG
127 AAAAATAGAATC-GGGGTTGGAGTATACCCTCG
* *
1739646 AAAATAATAGGGGT-AGAGTATCTCCGATGGTGAAGAAAATC-ATATTTT
1 AAAATAACAGGGTTGA-AGTATCTCCGATGGTGAA-AAAATCGATATTTT
1739694 GGAAAAAAAA
Statistics
Matches: 302, Mismatches: 40, Indels: 40
0.79 0.10 0.10
Matches are distributed among these distances:
156 7 0.02
157 151 0.50
158 123 0.41
159 15 0.05
160 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (158 bp):
AAAATAACAGGGTTGAAGTATCTCCGATGGTGAAAAAATCGATATTTTAAAAATAGAACCGAGGT
TAGAGTATCCTCTCAAAAATAATAGGTTAGAGTATCCTCGATGGTAGAAAAACGATATTTTAAAA
ATAGAATCGGGGTTGGAGTATACCCTCG
Found at i:1741551 original size:23 final size:23
Alignment explanation
Indices: 1741525--1741569 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1741515 TTCTGGTGGT
*
1741525 GGTTTTGGA-AGCTATAGGAATAA
1 GGTTTTGGAGAGCAAT-GGAATAA
1741548 GGTTTTGGAGAGCAATGGAATA
1 GGTTTTGGAGAGCAATGGAATA
1741570 GTTTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.29
Consensus pattern (23 bp):
GGTTTTGGAGAGCAATGGAATAA
Found at i:1742161 original size:20 final size:20
Alignment explanation
Indices: 1742136--1742173 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1742126 TATAAGTATG
1742136 TATCGATACATTTACTTATT
1 TATCGATACATTTACTTATT
*
1742156 TATCGATACATTTCCTTA
1 TATCGATACATTTACTTA
1742174 GTAGTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (20 bp):
TATCGATACATTTACTTATT
Found at i:1742236 original size:20 final size:20
Alignment explanation
Indices: 1742193--1742264 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 20
1742183 AGGGTAGTTT
***
1742193 TGTATCGATATATTTTAGACA
1 TGTATCGATATA-TTTATTTA
1742214 TGTATCGATATATTTATTTA
1 TGTATCGATATATTTATTTA
*
1742234 TGTATCGATACATTTACTGTT-
1 TGTATCGATATATTTA-T-TTA
1742255 TGTATCGATA
1 TGTATCGATA
1742265 CAAATTGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.44
21 23 0.51
22 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TGTATCGATATATTTATTTA
Found at i:1742260 original size:21 final size:20
Alignment explanation
Indices: 1742213--1742266 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
1742203 TATTTTAGAC
*
1742213 ATGTATCGATATATTTATTT
1 ATGTATCGATACATTTATTT
1742233 ATGTATCGATACATTTACTGTT
1 ATGTATCGATACATTTA-T-TT
1742255 -TGTATCGATACA
1 ATGTATCGATACA
1742267 AATTGTAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 16 0.52
21 13 0.42
22 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTTATTT
Found at i:1743625 original size:20 final size:20
Alignment explanation
Indices: 1743602--1743639 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1743592 ATCAATATAT
*
1743602 AAGTGATTGTATCGATACGC
1 AAGTGATTATATCGATACGC
*
1743622 AAGTGATTATATTGATAC
1 AAGTGATTATATCGATAC
1743640 ATTCACCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
AAGTGATTATATCGATACGC
Found at i:1743695 original size:20 final size:21
Alignment explanation
Indices: 1743670--1743709 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1743660 CAATCAAGCG
1743670 AAAATGC-CTAATGTATCAAC
1 AAAATGCTCTAATGTATCAAC
*
1743690 AAAATGCTCTATTGTATCAA
1 AAAATGCTCTAATGTATCAA
1743710 TAAATTCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAATGCTCTAATGTATCAAC
Found at i:1744353 original size:47 final size:46
Alignment explanation
Indices: 1744302--1744414 Score: 136
Period size: 46 Copynumber: 2.4 Consensus size: 46
1744292 TCCAGATTAA
* * * * *
1744302 GTATATTCTCATCCAATTTTCAATAACAAAGTCTAGTTCCAGCTTTG
1 GTATATTCTTATCCAATCTTCAACAACAAAGT-TAGTTCAAACTTTG
** * *
1744349 GTATATTCTTATCCAATCTTCAACAGTAAAGTTTGTTTAAACTTTG
1 GTATATTCTTATCCAATCTTCAACAACAAAGTTAGTTCAAACTTTG
1744395 GTATATTCTTATCCAATCTT
1 GTATATTCTTATCCAATCTT
1744415 TTCTTACTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
46 30 0.53
47 27 0.47
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (46 bp):
GTATATTCTTATCCAATCTTCAACAACAAAGTTAGTTCAAACTTTG
Found at i:1749051 original size:14 final size:14
Alignment explanation
Indices: 1749034--1749079 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 14
1749024 ATATTATTAA
*
1749034 AATATTTTTATATT
1 AATATTTATATATT
1749048 AATATTTATATA-T
1 AATATTTATATATT
1749061 -ATATTTATA-ATT
1 AATATTTATATATT
1749073 AA-ATTTA
1 AATATTTA
1749080 AATAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 15 0.52
13 2 0.07
14 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATATTTATATATT
Found at i:1750566 original size:3 final size:3
Alignment explanation
Indices: 1750551--1750592 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
1750541 TTAGTTATTG
*
1750551 TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1750593 CTTATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1750961 original size:2 final size:2
Alignment explanation
Indices: 1750954--1750984 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1750944 GATCCGCCTA
1750954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1750985 ACTAGAATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1751139 original size:14 final size:15
Alignment explanation
Indices: 1751098--1751140 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1751088 TAAAATAATA
* *
1751098 ATTTTTATTTAAGAT
1 ATTTTTATTTTATAT
1751113 ATTTTTATTTT-TAT
1 ATTTTTATTTTATAT
1751127 ATTTTTTATTTTAT
1 A-TTTTTATTTTAT
1751141 TTAATGCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.83
16 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
ATTTTTATTTTATAT
Found at i:1754935 original size:23 final size:23
Alignment explanation
Indices: 1754897--1754940 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1754887 ATAATATTTT
* * *
1754897 TAATATAATTATAATACGAAAAA
1 TAATATAAATACAATAAGAAAAA
1754920 TAATATAAATACAATAAGAAA
1 TAATATAAATACAATAAGAAA
1754941 GGCAAAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (23 bp):
TAATATAAATACAATAAGAAAAA
Found at i:1754971 original size:16 final size:15
Alignment explanation
Indices: 1754950--1754994 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1754940 AGGCAAAGTT
1754950 TTTTTTTTCTCTTTC
1 TTTTTTTTCTCTTTC
*
1754965 CTTTTTTTC-CTTT-
1 TTTTTTTTCTCTTTC
1754978 TTTGTTTTTCTCTTTC
1 TTT-TTTTTCTCTTTC
1754994 T
1 T
1754995 GTTTCCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.08
14 10 0.40
15 12 0.48
16 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTTTCTCTTTC
Found at i:1760235 original size:23 final size:20
Alignment explanation
Indices: 1760204--1760262 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 20
1760194 TTTTAGCTTG
*
1760204 TTTTGATTTTAATGGTTAAAAA
1 TTTTTATTTTAAT--TTAAAAA
1760226 TTATTTATTTATTAATTTAAAAA
1 TT-TTTA-TT-TTAATTTAAAAA
1760249 TTTTTATATTTAAT
1 TTTTTAT-TTTAAT
1760263 ACATCATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
21 6 0.19
22 7 0.22
23 12 0.38
24 2 0.06
25 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTTATTTTAATTTAAAAA
Found at i:1761101 original size:3 final size:3
Alignment explanation
Indices: 1761093--1761128 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1761083 ATACTTACCC
1761093 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1761129 GTTGTTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1761594 original size:18 final size:18
Alignment explanation
Indices: 1761567--1761623 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
1761557 TTTAACACAT
*
1761567 ATTATAATAATACATAAA
1 ATTATTATAATACATAAA
1761585 ATTATTATAATTACAT-AA
1 ATTATTATAA-TACATAAA
1761603 ATATATTATAGATAACATAAA
1 AT-TATTATA-AT-ACATAAA
1761624 TCTTTATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 13 0.39
19 13 0.39
20 5 0.15
21 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
ATTATTATAATACATAAA
Found at i:1761601 original size:19 final size:20
Alignment explanation
Indices: 1761565--1761623 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
1761555 TTTTTAACAC
1761565 ATATTATAATAATACATAAAAT
1 ATATTATAAT--TACATAAAAT
1761587 -TATTATAATTACAT-AAAT
1 ATATTATAATTACATAAAAT
*
1761605 ATATTATAGATAACATAAA
1 ATATTATA-ATTACATAAA
1761624 TCTTTATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 4 0.12
19 12 0.36
20 6 0.18
21 11 0.33
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATTATAATTACATAAAAT
Found at i:1762157 original size:13 final size:13
Alignment explanation
Indices: 1762130--1762164 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1762120 AATAATAATA
*
1762130 TCAAAA-TTGTTT
1 TCAAAAGTTTTTT
1762142 TCAAAAGTTTTTT
1 TCAAAAGTTTTTT
1762155 TCAAAAGTTT
1 TCAAAAGTTT
1762165 GTGATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (13 bp):
TCAAAAGTTTTTT
Found at i:1763175 original size:13 final size:13
Alignment explanation
Indices: 1763157--1763187 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1763147 ACATTTCTTC
1763157 ATGTATCGATACA
1 ATGTATCGATACA
1763170 ATGTATCGATACA
1 ATGTATCGATACA
*
1763183 TTGTA
1 ATGTA
1763188 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1763175 original size:33 final size:33
Alignment explanation
Indices: 1763137--1763200 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
1763127 GTTACAAGCT
1763137 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
1763170 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
1763201 TAAATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1763277 original size:19 final size:19
Alignment explanation
Indices: 1763232--1763288 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1763222 CTGCTAGTTT
**
1763232 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
1763253 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1763272 CATGTATCGATATAATG
1 CATGTATCGATACAATG
1763289 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1763295 original size:32 final size:33
Alignment explanation
Indices: 1763254--1763316 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
1763244 CAATTTGTCC
*
1763254 ATGTATCGATACAATG-AACATGTATCGATATA
1 ATGTATCGATACAAAGCAACATGTATCGATATA
*
1763286 ATGTATCGATACAAAGCAGCATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
1763317 CATCTTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATATA
Found at i:1769331 original size:20 final size:20
Alignment explanation
Indices: 1769306--1769367 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
1769296 AGGTACCCAA
1769306 ATTTTCTTAGCTAATTCACT
1 ATTTTCTTAGCTAATTCACT
*
1769326 ATTTTCATTAGC-CA--C-CT
1 ATTTTC-TTAGCTAATTCACT
1769343 -TATTTCTTAGCTAATTCACT
1 AT-TTTCTTAGCTAATTCACT
1769363 ATTTT
1 ATTTT
1769368 TTATTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 1 0.03
19 1 0.03
20 12 0.36
21 6 0.18
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTTCTTAGCTAATTCACT
Found at i:1771469 original size:21 final size:20
Alignment explanation
Indices: 1771443--1771498 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1771433 CTGCCAGTTT
**
1771443 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
1771464 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
1771483 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1771499 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1771502 original size:13 final size:13
Alignment explanation
Indices: 1771484--1771510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1771474 TATAATGAAC
1771484 ATGTATCGATACA
1 ATGTATCGATACA
1771497 ATGTATCGATACA
1 ATGTATCGATACA
1771510 A
1 A
1771511 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1771525 original size:33 final size:32
Alignment explanation
Indices: 1771465--1771529 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1771455 CAATTTGTCC
* *
1771465 ATGTATCGATATAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1771497 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1771530 TCTTGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1771688 original size:24 final size:23
Alignment explanation
Indices: 1771636--1771689 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1771626 TATGTTTTAC
1771636 TTAAAAACTCTTAAAATTAAGGT
1 TTAAAAACTCTTAAAATTAAGGT
*
1771659 TTAAAAACTCTTGAAATTAAGGT
1 TTAAAAACTCTTAAAATTAAGGT
1771682 TTAAAAAC
1 TTAAAAAC
1771690 ATTCGTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
TTAAAAACTCTTAAAATTAAGGT
Found at i:1773306 original size:80 final size:80
Alignment explanation
Indices: 1773119--1773532 Score: 381
Period size: 80 Copynumber: 5.2 Consensus size: 80
1773109 GTAAAAATGG
* * *
1773119 GGTTGGAGTATCCCCTCGGAGATGGTGGGGTCAGAGTACCCCGA-AGATGAAAAATTTAGTGTTT
1 GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTAGAGTACCCCTATAGATGAAAAATTTGGTGTTT
* *
1773183 TGAAAATAAAAATAA
66 TGGAAATAAAAACAA
* * * * * * * * * *
1773198 GGTTAGAGAATCCCTTTGAAGATAGTGGGATTAAAGTACCCCTAAAGATTAAAAATTTGGTGTTT
1 GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTAGAGTACCCCTATAGATGAAAAATTTGGTGTTT
1773263 TGGAAATAAAAACAA
66 TGGAAATAAAAACAA
* * * **
1773278 GGTTGGAGTATTCGCTCGGAGATGGTGGGGTTAGAGTATCCCTATAGATGAAAAATTTAATGTTT
1 GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTAGAGTACCCCTATAGATGAAAAATTTGGTGTTT
*
1773343 T-GAATATAAAAACGA
66 TGGAA-ATAAAAACAA
* * ** * **** * * *
1773358 GGTTAGAATATCCCCTCGGAGATGAAGGGGTTGGAGTATATTTATAGATGAAAAATTCGATATTT
1 GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTAGAGTACCCCTATAGATGAAAAATTTGGTGTTT
*
1773423 TGGAAATAAAAACTA
66 TGGAAATAAAAACAA
* ** * * * *
1773438 GCTTGGAGTA-CCCCTTCAAAGATGGTGGGGTT-GAAATATCCCC-ATAGATGGATATTTTGGTG
1 GGTTGGAGTATCCCC-TCGGAGATGGTGGGGTTAG-AGTA-CCCCTATAGATGAAAAATTTGGTG
1773500 TTTTGGAAATAAAAACAA
63 TTTTGGAAATAAAAACAA
1773518 GGTTGGAGTA-CCCCT
1 GGTTGGAGTATCCCCT
1773533 TTTAATAGTT
Statistics
Matches: 265, Mismatches: 64, Indels: 12
0.78 0.19 0.04
Matches are distributed among these distances:
79 43 0.16
80 219 0.83
81 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (80 bp):
GGTTGGAGTATCCCCTCGGAGATGGTGGGGTTAGAGTACCCCTATAGATGAAAAATTTGGTGTTT
TGGAAATAAAAACAA
Found at i:1774045 original size:21 final size:21
Alignment explanation
Indices: 1774019--1774074 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1774009 CATAGGTAAA
*
1774019 TATATCAATACATTTACT-ATT
1 TATATCGATACATTTACTCA-T
*
1774040 TATATCGATACA-TTATTCAT
1 TATATCGATACATTTACTCAT
1774060 TATATCGATACATTT
1 TATATCGATACATTT
1774075 TGGGTTCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (21 bp):
TATATCGATACATTTACTCAT
Found at i:1778000 original size:21 final size:22
Alignment explanation
Indices: 1777976--1778018 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1777966 TTATGTATAA
* *
1777976 ATAT-TTTTCAAGCATAAAATC
1 ATATGTTTTCAAGAAAAAAATC
1777997 ATATGTTTTCAAGAAAAAAATC
1 ATATGTTTTCAAGAAAAAAATC
1778019 TAAAGTATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATGTTTTCAAGAAAAAAATC
Found at i:1779514 original size:34 final size:35
Alignment explanation
Indices: 1779476--1779542 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1779466 CCTTACAACA
1779476 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1779510 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1779543 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1780031 original size:13 final size:13
Alignment explanation
Indices: 1780013--1780037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1780003 CTATTTATGA
1780013 TGTATCGATACAC
1 TGTATCGATACAC
1780026 TGTATCGATACA
1 TGTATCGATACA
1780038 TGAATAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1780147 original size:10 final size:10
Alignment explanation
Indices: 1780128--1780168 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
1780118 GTATCGATAC
1780128 ATGAACAGTG
1 ATGAACAGTG
*
1780138 ATGAATAGTG
1 ATGAACAGTG
*
1780148 ATGAATAGTG
1 ATGAACAGTG
1780158 ATGAACAGTG
1 ATGAACAGTG
1780168 A
1 A
1780169 AAATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.24
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1780272 original size:53 final size:53
Alignment explanation
Indices: 1780192--1780328 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
1780182 CTACTACCAA
* *
1780192 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGATACTGCCAGTGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
* *
1780245 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
*
1780298 TATATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
1780329 TATGGAATCT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 62 0.79
54 16 0.21
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGATACTGCCAATGACC
Found at i:1780434 original size:21 final size:21
Alignment explanation
Indices: 1780408--1780448 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1780398 GTCAACCTTG
1780408 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATATGTATA
*
1780429 TGTATTGATACAATATGTAT
1 TGTATTAATACAATATGTAT
1780449 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATTAATACAATATGTATA
Found at i:1781303 original size:3 final size:3
Alignment explanation
Indices: 1781295--1781324 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1781285 AGATGATAAA
1781295 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1781325 AAAGTTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:1789743 original size:13 final size:13
Alignment explanation
Indices: 1789725--1789749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1789715 CAATCACTTA
1789725 TGTATCGATACAT
1 TGTATCGATACAT
1789738 TGTATCGATACA
1 TGTATCGATACA
1789750 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1789760 original size:32 final size:33
Alignment explanation
Indices: 1789692--1789768 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
1789682 GCAGTAGCTT
*
1789692 TGTAACGATACATTCTATCGATACAATCACTTA
1 TGTATCGATACATTCTATCGATACAATCACTTA
*
1789725 TGTATCGATACATTGTATCGATACAA-CACTTA
1 TGTATCGATACATTCTATCGATACAATCACTTA
1789757 TGTATCGATACA
1 TGTATCGATACA
1789769 GTTACTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 18 0.43
33 24 0.57
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATTCTATCGATACAATCACTTA
Found at i:1789762 original size:19 final size:19
Alignment explanation
Indices: 1789707--1789768 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
1789697 CGATACATTC
1789707 TATCGATACAATCACTTATG
1 TATCGATACAA-CACTTATG
1789727 TATCGAT---ACA--T-TG
1 TATCGATACAACACTTATG
1789740 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
1789759 TATCGATACA
1 TATCGATACA
1789769 GTTACTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 5 0.14
17 1 0.03
18 1 0.03
19 12 0.33
20 7 0.19
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:1791396 original size:29 final size:28
Alignment explanation
Indices: 1791357--1791420 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1791347 AAAAGGGAGA
*
1791357 GATAAC-AAAAAGGGAGAGAAAATTGTTT
1 GATAACAAAAAAGGG-GAGAAAATTATTT
1791385 GATAACAAAAAAGGGGAGAAAATTATTT
1 GATAACAAAAAAGGGGAGAAAATTATTT
1791413 --TAACAAAA
1 GATAACAAAA
1791421 GAGAGCTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (28 bp):
GATAACAAAAAAGGGGAGAAAATTATTT
Found at i:1795102 original size:13 final size:13
Alignment explanation
Indices: 1795084--1795108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1795074 TACAAAGATC
1795084 AATGTATCGATAT
1 AATGTATCGATAT
1795097 AATGTATCGATA
1 AATGTATCGATA
1795109 CATTGAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1795107 original size:33 final size:33
Alignment explanation
Indices: 1795065--1795128 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
1795055 AAATTCCCAT
1795065 ATGTATCGATACAAAG-ATCAATGTATCGATATA
1 ATGTATCGATACAAAGAAT-AATGTATCGATATA
**
1795098 ATGTATCGATACATTGAATAATGTATCGATA
1 ATGTATCGATACAAAGAATAATGTATCGATA
1795129 CATTTCCTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATATA
Found at i:1795120 original size:20 final size:20
Alignment explanation
Indices: 1795095--1795132 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1795085 ATGTATCGAT
1795095 ATAATGTATCGATACATTGA
1 ATAATGTATCGATACATTGA
1795115 ATAATGTATCGATACATT
1 ATAATGTATCGATACATT
1795133 TCCTTGGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATAATGTATCGATACATTGA
Found at i:1795630 original size:21 final size:22
Alignment explanation
Indices: 1795587--1795630 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1795577 GTATAAATGT
* * *
1795587 TTTTCAAGCATAAAATCATAAG
1 TTTTCAAGAAAAAAATCACAAG
1795609 TTTTCAAGAAAAAAATC-CAAG
1 TTTTCAAGAAAAAAATCACAAG
1795630 T
1 T
1795631 ATCGATACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (22 bp):
TTTTCAAGAAAAAAATCACAAG
Found at i:1795781 original size:32 final size:33
Alignment explanation
Indices: 1795719--1795782 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1795709 CATAACCAAA
* *
1795719 TGTATCAATACATATTGCTTTGTATCGATACAT
1 TGTATCAATACATATTGCATAGTATCGATACAT
*
1795752 TGTATCAATACATGTT-CATAGTATCGATACA
1 TGTATCAATACATATTGCATAGTATCGATACA
1795783 CCTTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATATTGCATAGTATCGATACAT
Found at i:1798819 original size:62 final size:63
Alignment explanation
Indices: 1798719--1798856 Score: 217
Period size: 62 Copynumber: 2.2 Consensus size: 63
1798709 CTACTAAGGC
* *
1798719 CATGTATTGATACAATCACTACTAGGTATCGATGCCAC-ACTTTGGGTATTGATACCAAGCCTT
1 CATGTATTGATACAATCACTACTAGGTATCGATACCACAAC-TTGGGTATCGATACCAAGCCTT
*
1798782 CATGTATTGATACCATCAC-ACTAGGTATCGATACCACAACTTGGGTATCGATACCAAGCCTT
1 CATGTATTGATACAATCACTACTAGGTATCGATACCACAACTTGGGTATCGATACCAAGCCTT
*
1798844 CATGTATCGATAC
1 CATGTATTGATAC
1798857 TTACTGTCCA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
62 50 0.71
63 20 0.29
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (63 bp):
CATGTATTGATACAATCACTACTAGGTATCGATACCACAACTTGGGTATCGATACCAAGCCTT
Found at i:1798962 original size:21 final size:20
Alignment explanation
Indices: 1798915--1798967 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1798905 CCAATCACAC
*
1798915 TAGGTATCGATACCACACCT
1 TAGGTATCGATACCAAACCT
*
1798935 TCGGTATCGATACCAAACCCT
1 TAGGTATCGATACCAAA-CCT
* *
1798956 TATGTATTGATA
1 TAGGTATCGATA
1798968 TATTGCATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
TAGGTATCGATACCAAACCT
Found at i:1802770 original size:24 final size:24
Alignment explanation
Indices: 1802738--1802784 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1802728 CTTTTTGTTG
1802738 TCTCCCAAATTTTACAAAACAAAC
1 TCTCCCAAATTTTACAAAACAAAC
1802762 TCTCCCAAATTTTACAAAACAAA
1 TCTCCCAAATTTTACAAAACAAA
1802785 TTTATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (24 bp):
TCTCCCAAATTTTACAAAACAAAC
Found at i:1804787 original size:20 final size:21
Alignment explanation
Indices: 1804757--1804796 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1804747 ATCTGGGTTT
*
1804757 TCCAGATGTATCGATACATTA
1 TCCAGATGTATCAATACATTA
1804778 TCCA-ATGTATCAATACATT
1 TCCAGATGTATCAATACATT
1804797 TGGGAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (21 bp):
TCCAGATGTATCAATACATTA
Found at i:1809936 original size:27 final size:27
Alignment explanation
Indices: 1809906--1810257 Score: 110
Period size: 28 Copynumber: 12.6 Consensus size: 27
1809896 GTACTGACTC
*
1809906 GTGGGCTTT-ACAAGGTACCATTAACTT
1 GTGGGCTTTGAAAAGGTACCATT-ACTT
1809933 GTGGGCTTTGAAAAGGATACCACTTACTT
1 GTGGGCTTTGAAAAGG-TACCA-TTACTT
*
1809962 GTGGGTTTTGAAAAGGGTACCATTGACTT
1 GTGGGCTTTGAAAA-GGTACCATT-ACTT
** * * * * *
1809991 GTGAACTTT-AGAGGGATGCCACTGACCT
1 GTGGGCTTTGAAAAGG-TACCA-TTACTT
* * * * *
1810019 GTGTGCTTTG-GAAGGTTGCCACTGACTA
1 GTGGGCTTTGAAAAGG-TACCA-TTACTT
* * *
1810047 ATGGGCTTT-AAAAGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGGTACCA-TTACTT
* * * *
1810074 GTGGCCATTTG-TAAGGATGCCACTGA-TT
1 GTGGGC-TTTGAAAAGG-TACCA-TTACTT
* * * * * *
1810102 CATGAGCTTTGAAATGGTGCCACTAACTC
1 -GTGGGCTTTGAAAAGGTACCA-TTACTT
* * *
1810131 ATGGGCTTT-AAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAA-GGTACCA-TTACTT
* *
1810159 GTGGGCTTTG-AAAGGATGCCACTGACTT
1 GTGGGCTTTGAAAAGG-TACCA-TTACTT
* * *
1810187 GTGGGCTTTGAAAAGGTGCCACTGACTC
1 GTGGGCTTTGAAAAGGTACCA-TTACTT
* * *
1810215 ATGAGCTTTGAAAAGGTGCCAGTTACTT
1 GTGGGCTTTGAAAAGGTACCA-TTACTT
1810243 GTGGGCTTT-AAAAGG
1 GTGGGCTTTGAAAAGG
1810258 ATGTCACTGA
Statistics
Matches: 263, Mismatches: 43, Indels: 38
0.76 0.12 0.11
Matches are distributed among these distances:
27 37 0.14
28 163 0.62
29 59 0.22
30 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (27 bp):
GTGGGCTTTGAAAAGGTACCATTACTT
Found at i:1810054 original size:28 final size:28
Alignment explanation
Indices: 1810004--1811051 Score: 596
Period size: 28 Copynumber: 37.4 Consensus size: 28
1809994 AACTTTAGAG
*
1810004 GGATGCCACTGAC-C-TGTGTGCTTTGGAA
1 GGATGCCACTGACTCATG-G-GCTTTGAAA
* * *
1810032 GGTTGCCACTGACTAATGGGCTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
** * *
1810060 GG-TGCCACTGACTTGTGGCCATTTGTAA
1 GGATGCCACTGACTCATGGGC-TTTGAAA
* *
1810088 GGATGCCACTGATTCATGAGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* *
1810116 TGG-TGCCACTAACTCATGGGCTTTAAAA
1 -GGATGCCACTGACTCATGGGCTTTGAAA
* * **
1810144 GGGTGCCACTAACTTGTGGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
**
1810172 GGATGCCACTGACTTGTGGGCTTTGAAAA
1 GGATGCCACTGACTCATGGGCTTTG-AAA
*
1810201 GG-TGCCACTGACTCATGAGCTTTGAAAA
1 GGATGCCACTGACTCATGGGCTTTG-AAA
* * ** *
1810229 GG-TGCCAGTTACTTGTGGGCTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * *
1810256 GGATGTCACTGACTCGTGGGCTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * *
1810284 GGGTGCCACTAACTTATGGGCTTTTGAAA
1 GGATGCCACTGACTCATGGGC-TTTGAAA
*
1810313 GGATGCCA-TCGACTCGTGGGCTTTGAAA
1 GGATGCCACT-GACTCATGGGCTTTGAAA
1810341 GGATGCCACTGACTCATGGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * * *
1810369 GGATGCTAC-CACTCGTGGGCTTTGATA
1 GGATGCCACTGACTCATGGGCTTTGAAA
*
1810396 GGATGCCAC-CACTCATGGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * * ** *
1810423 GGGTGCCACTAATTTGTGGGCTTT-AGA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * *
1810450 GGAATGCCACAGAC-CTGTGGGCTTGGAAA
1 GG-ATGCCACTGACTC-ATGGGCTTTGAAA
* * * * *
1810479 GGTTGCTACTAACACATGGGCTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
** *
1810507 GG-TGCCACTGACTTGTAGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * **
1810534 TGGGTGCCACTGGCTTGTGGGCTTTGAAAAA
1 -GGATGCCACTGACTCATGGGCTTTG--AAA
* *
1810565 GG-TGCCACTGA-TCTGTGGGCTTTAAAAA
1 GGATGCCACTGACTC-ATGGGCTTT-GAAA
* * * *
1810593 GG-TGCCACTAACCCGTGGGCTTTAAAAA
1 GGATGCCACTGACTCATGGGCTTT-GAAA
* * * *
1810621 TGATGCCACTGACCCGTGGGCTTTAAAAA
1 GGATGCCACTGACTCATGGGCTTT-GAAA
* * **
1810650 GGGTGCCACTAACTTGTGGGCTTTGGAAA
1 GGATGCCACTGACTCATGGGCTTT-GAAA
* * **
1810679 -GATGCCATTAACTTGTGGGCTTTGAAAAA
1 GGATGCCACTGACTCATGGGCTTTG--AAA
* * ** *
1810708 GG-TG-CAGTTGATTTGTGGGCTTTAAAA
1 GGATGCCA-CTGACTCATGGGCTTTGAAA
* * * **
1810735 AGATGGCACGGACTTGTGGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * * **
1810763 GGGTGTCACTAACTTGTGGGCTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * ** * *
1810791 GGATGCCATTGAATTGTGGGTTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * ** *
1810819 GGGTGCCACTAACTTGTGGGCTTTGGAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * *
1810847 GGATGCCACCGACTCAGGGGCTTTAAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
* * * *
1810875 GG-TGCCACTAATTTATAGGCTTT-ACAA
1 GGATGCCACTGACTCATGGGCTTTGA-AA
**
1810902 GG-TGCCACTGACTTGTGGGCTTTGAAAA
1 GGATGCCACTGACTCATGGGCTTTG-AAA
* ** *
1810930 GGGTGCCACTGACTTGTGGGTTTTGAAA
1 GGATGCCACTGACTCATGGGCTTTGAAA
*
1810958 GG-TCGCCACTGACTCATGGGCTTTAAAA
1 GGAT-GCCACTGACTCATGGGCTTTGAAA
* * * *
1810986 AG-TGCCACTAACTTATGGACCTTTGAAA
1 GGATGCCACTGACTCATGG-GCTTTGAAA
* * *
1811014 GGATGCCATTGACTCGTGGTCTTTGAAAA
1 GGATGCCACTGACTCATGGGCTTTG-AAA
1811043 GG-TGCCACT
1 GGATGCCACT
1811052 AACTTATTGT
Statistics
Matches: 820, Mismatches: 162, Indels: 76
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.00
27 146 0.18
28 472 0.58
29 193 0.24
30 5 0.01
31 3 0.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
GGATGCCACTGACTCATGGGCTTTGAAA
Found at i:1810092 original size:84 final size:82
Alignment explanation
Indices: 1810004--1811051 Score: 815
Period size: 84 Copynumber: 12.5 Consensus size: 82
1809994 AACTTTAGAG
* * * *
1810004 GGATGCCACTGACCTGTGTGCTTTGGAAGGTTGCCACTGACTAATGGGCTTTAAAAGGTGCCACT
1 GGATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTCATGGGCTTTAAAAGGTGCCACT
* * *
1810069 GACTTGTGGCCATTTGTAA
65 AACTTGTGGGC-TTTGAAA
* * *
1810088 GGATGCCACTGA-TTCATGAGCTTTGAAATGGTGCCACTAACTCATGGGCTTTAAAAGGGTGCCA
1 GGATGCCACTGACTT-GTGGGCTTTGAAA-GGTGCCACTGACTCATGGGCTTTAAAA-GGTGCCA
1810152 CTAACTTGTGGGCTTTGAAA
63 CTAACTTGTGGGCTTTGAAA
* *
1810172 GGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTCATGAGCTTTGAAAAGGTGCCAG
1 GGATGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTGACTCATGGGCTTT-AAAAGGTGCCAC
* *
1810237 TTACTTGTGGGCTTTAAAA
64 TAACTTGTGGGCTTTGAAA
* * * * * *
1810256 GGATGTCACTGACTCGTGGGCTTTAAAAGGGTGCCACTAACTTATGGGCTTTTGAAAGGATGCCA
1 GGATGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACTGACTCATGGGC-TTTAAAAGG-TGCCA
* *
1810321 -TCGACTCGTGGGCTTTGAAA
63 CT-AACTTGTGGGCTTTGAAA
** * * * * *
1810341 GGATGCCACTGACTCATGGGCTTTGAAAGGATGCTAC-CACTCGTGGGCTTTGATAGGATGCCAC
1 GGATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTCATGGGCTTTAAAAGG-TGCCAC
* **
1810405 -CACTCATGGGCTTTGAAA
64 TAACTTGTGGGCTTTGAAA
* * * * * * ** *
1810423 GGGTGCCACTAATTTGTGGGCTTT-AGAGGAATGCCACAGAC-CTGTGGGCTTGGAAAGGTTGCT
1 GGATGCCACTGACTTGTGGGCTTTGAAAGG--TGCCACTGACTC-ATGGGCTTTAAAAGG-TGCC
*** *
1810486 ACTAACACATGGGCTTTAAAA
62 ACTAACTTGTGGGCTTTGAAA
* * **
1810507 GG-TGCCACTGACTTGTAGGCTTTGAAATGGGTGCCACTGGCTTGTGGGCTTTGAAAAAGGTGCC
1 GGATGCCACTGACTTGTGGGCTTTGAAA--GGTGCCACTGACTCATGGGCTTT--AAAAGGTGCC
* *
1810571 ACTGA-TCTGTGGGCTTTAAAAA
62 ACTAACT-TGTGGGCTTT-GAAA
* ** * * * *
1810593 GG-TGCCACTAACCCGTGGGCTTTAAAAATGATGCCACTGACCCGTGGGCTTTAAAAAGGGTGCC
1 GGATGCCACTGACTTGTGGGCTTT-GAAA-GGTGCCACTGACTCATGGGCTTT-AAAA-GGTGCC
1810657 ACTAACTTGTGGGCTTTGGAAA
62 ACTAACTTGTGGGCTTT-GAAA
* * * * ** * *
1810679 -GATGCCATTAACTTGTGGGCTTTGAAAAAGGTG-CAGTTGATTTGTGGGCTTTAAAAAGATGGC
1 GGATGCCACTGACTTGTGGGCTTTG--AAAGGTGCCA-CTGACTCATGGGCTTT-AAAAGGTGCC
**
1810742 ACGGACTTGTGGGCTTTGAAA
62 ACTAACTTGTGGGCTTTGAAA
* * * * * ** *
1810763 GGGTGTCACTAACTTGTGGGCTTTGAAAGGATGCCATTGAATTGTGGGTTTTAAAAGGGTGCCAC
1 GGATGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTCATGGGCTTTAAAA-GGTGCCAC
*
1810828 TAACTTGTGGGCTTTGGAA
64 TAACTTGTGGGCTTTGAAA
* * * * * * * *
1810847 GGATGCCACCGACTCAG-GGGCTTTAAAAGGTGCCACTAATTTATAGGCTTTACAAGGTGCCACT
1 GGATGCCACTGACT-TGTGGGCTTTGAAAGGTGCCACTGACTCATGGGCTTTAAAAGGTGCCACT
*
1810911 GACTTGTGGGCTTTGAAAA
65 AACTTGTGGGCTTTG-AAA
* * *
1810930 GGGTGCCACTGACTTGTGGGTTTTGAAAGGTCGCCACTGACTCATGGGCTTTAAAAAGTGCCACT
1 GGATGCCACTGACTTGTGGGCTTTGAAAGGT-GCCACTGACTCATGGGCTTTAAAAGGTGCCACT
* *
1810995 AACTTATGGACCTTTGAAA
65 AACTTGTGG-GCTTTGAAA
* * *
1811014 GGATGCCATTGACTCGTGGTCTTTGAAAAGGTGCCACT
1 GGATGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACT
1811052 AACTTATTGT
Statistics
Matches: 788, Mismatches: 135, Indels: 82
0.78 0.13 0.08
Matches are distributed among these distances:
81 4 0.01
82 66 0.08
83 109 0.14
84 333 0.42
85 159 0.20
86 110 0.14
87 7 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (82 bp):
GGATGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTCATGGGCTTTAAAAGGTGCCACTA
ACTTGTGGGCTTTGAAA
Found at i:1810095 original size:56 final size:55
Alignment explanation
Indices: 1809898--1811051 Score: 691
Period size: 56 Copynumber: 20.6 Consensus size: 55
1809888 TGATGCTAGT
* * * * * *
1809898 ACTGACTCGTGGGCTTT-ACAAGG-TACCATTAACTTGTGGGCTTTGAAAAGGATACC
1 ACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTCGTGGGCTTT-AAAAGG-TGCC
* * * * * * ** * *
1809954 ACTTACTTGTGGGTTTTGAAAAGGGTACCATTGACTTGTGAACTTTAGAGGGATGCC
1 ACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTAAAAGG-TGCC
* * * * **
1810011 ACTGACCTGTGTGCTTTGGAAGGTTGCCACTGACTAATGGGCTTTAAAAGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGGTGCC
* * * * * *
1810066 ACTGACTTGTGGCCATTTGTAAGGATGCCACTGATTCATGAGCTTTGAAATGGTGCC
1 ACTGACTTGTGGGC-TTTGAAAGGATGCCACTGACTCGTGGGCTTT-AAAAGGTGCC
* ** * * * * *
1810123 ACTAACTCATGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGG-TGCC
* *
1810179 ACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTCATGAGCTTTGAAAAGGTGCC
1 ACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTT-AAAAGGTGCC
* * * *
1810235 AGTTACTTGTGGGCTTTAAAAGGATGTCACTGACTCGTGGGCTTTAAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAA-GGTGCC
* * *
1810291 ACTAACTTATGGGCTTTTGAAAGGATGCCA-TCGACTCGTGGGCTTTGAAAGGATGCC
1 ACTGACTTGTGGGC-TTTGAAAGGATGCCACT-GACTCGTGGGCTTTAAAAGG-TGCC
** * * * *
1810348 ACTGACTCATGGGCTTTGAAAGGATGCTAC-CACTCGTGGGCTTTGATAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGG-TGCC
* ** * * * * *
1810403 AC-CACTCATGGGCTTTGAAAGGGTGCCACTAATTTGTGGGCTTT-AGAGGAATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGG--TGCC
* * * * * * * *
1810458 ACAGACCTGTGGGCTTGGAAAGGTTGCTACTAACACATGGGCTTTAAAAGGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGGTGCC
* * * *
1810513 ACTGACTTGTAGGCTTTGAAATGGGTGCCACTGGCTTGTGGGCTTTGAAAAAGGTGCC
1 ACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTCGTGGGCTTT--AAAAGGTGCC
* * * *
1810571 ACTGA-TCTGTGGGCTTTAAAAAGG-TGCCACTAACCCGTGGGCTTTAAAAATGATGCC
1 ACTGACT-TGTGGGCTTT-GAAAGGATGCCACTGACTCGTGGGCTTT-AAAA-GGTGCC
** * * * * * *
1810628 ACTGACCCGTGGGCTTTAAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAAGATGCC
1 ACTGACTTGTGGGCTTT-GAAAGGATGCCACTGACTCGTGGGCTTT-AAAAGGTGCC
* * * * * * *
1810685 ATTAACTTGTGGGCTTTGAAAAAGG-TG-CAGTTGATTTGTGGGCTTTAAAAAGATGGC
1 ACTGACTTGTGGGCTTTG--AAAGGATGCCA-CTGACTCGTGGGCTTT-AAAAGGTGCC
* * * * * *
1810742 ACGGACTTGTGGGCTTTGAAAGGGTGTCACTAACTTGTGGGCTTTGAAAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGG-TGCC
* * * * * * * **
1810798 ATTGAATTGTGGGTTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGG-TGCC
* * * * * ** * *
1810854 ACCGACTCAG-GGGCTTTAAAAGG-TGCCACTAATTTATAGGCTTTACAAGGTGCC
1 ACTGACT-TGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGGTGCC
* * * *
1810908 ACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGTCGCC
1 ACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTAAAAGGT-GCC
** * * * ** * *
1810965 ACTGACTCATGGGCTTTAAAAAG-TGCCACTAACTTATGGACCTTTGAAAGGATGCC
1 ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGG-GCTTTAAAAGG-TGCC
* * *
1811021 ATTGACTCGTGGTCTTTGAAAAGG-TGCCACT
1 ACTGACTTGTGGGCTTTG-AAAGGATGCCACT
1811052 AACTTATTGT
Statistics
Matches: 883, Mismatches: 175, Indels: 79
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.00
54 45 0.05
55 142 0.16
56 381 0.43
57 239 0.27
58 72 0.08
59 3 0.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (55 bp):
ACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAGGTGCC
Found at i:1812194 original size:1 final size:1
Alignment explanation
Indices: 1812190--1812283 Score: 62
Period size: 1 Copynumber: 94.0 Consensus size: 1
1812180 TTCTTTTTTC
* * * * * * * * *
1812190 AAAAAAAAAAACAAAAAAAACAATAAAACAAACAAAAAAAAAACAACACAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
1812255 AGAAAAAAGAAGAAAAAGAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1812284 GAACCTGCTT
Statistics
Matches: 65, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.85, C:0.07, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:1812226 original size:20 final size:20
Alignment explanation
Indices: 1812190--1812248 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
1812180 TTCTTTTTTC
1812190 AAAA-AAAA-AAACAAAAAA
1 AAAACAAAACAAACAAAAAA
*
1812208 AACAATAAAACAAACAAAAAA
1 AA-AACAAAACAAACAAAAAA
*
1812229 AAAACAACACAAA-AAAAAA
1 AAAACAAAACAAACAAAAAA
1812248 A
1 A
1812249 GAAAAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
18 2 0.06
19 9 0.25
20 13 0.36
21 12 0.33
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (20 bp):
AAAACAAAACAAACAAAAAA
Found at i:1812260 original size:16 final size:15
Alignment explanation
Indices: 1812190--1812278 Score: 88
Period size: 17 Copynumber: 5.5 Consensus size: 15
1812180 TTCTTTTTTC
1812190 AAAAAAAAAAACAAA
1 AAAAAAAAAAACAAA
1812205 AAAAACAATAAAACAAA
1 AAAAA-AA-AAAACAAA
*
1812222 CAAAAAAAAAACAACA
1 AAAAAAAAAAACAA-A
* *
1812238 CAAAAAAAAAAGAAA
1 AAAAAAAAAAACAAA
*
1812253 AAAGAAAAAAGAAGAAA
1 AAA-AAAAAA-AACAAA
1812270 AAGAAAAAA
1 AA-AAAAAA
1812279 GAAAAGAACC
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
15 15 0.23
16 24 0.37
17 25 0.38
18 1 0.02
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.01
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:1812262 original size:35 final size:34
Alignment explanation
Indices: 1812190--1812286 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 34
1812180 TTCTTTTTTC
* *
1812190 AAAAAAAAAAACAAAAAAAACAATAAAACAAACA
1 AAAAAAAAAAACAAAAAAAAAAAGAAAACAAACA
1812224 AAAAAAAAACAACACAAAAAAAAAAGAAAA-AAGA-A
1 AAAAAAAAA-AACA-AAAAAAAAAAGAAAACAA-ACA
* *
1812259 AAAAGAAGAAAAAGAAAAAAGAAAAGAA
1 AAAA-AA-AAAAACAAAAAAAAAAAGAA
1812287 CCTGCTTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
34 9 0.17
35 23 0.43
36 19 0.35
37 3 0.06
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.01
Consensus pattern (34 bp):
AAAAAAAAAAACAAAAAAAAAAAGAAAACAAACA
Found at i:1813425 original size:61 final size:61
Alignment explanation
Indices: 1813285--1813759 Score: 604
Period size: 61 Copynumber: 7.8 Consensus size: 61
1813275 GCCTGCTCTC
* * * *
1813285 TTTAAAGCCCACATAAGTTGATGGCAACTTCCAGTCCTCAAAGAGCAGGACA-C-TTTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
*
1813344 TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * ** *
1813405 TTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCGTCAAAGAGCATGATGCCTTTTTCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
1813466 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACACCTTTTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG--ACACCTTTTCCT
*
1813529 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * *
1813590 TTGAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGAC-GC-TTTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * **
1813649 TTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAGAGAGCAGGAC-GTTTTCTCCT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTT-TCCT
*** * *
1813710 CACAAAGCCCATACAAGTTGGTGGCACC-TTCTAGTCCCCAAAGAGCAGGA
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA
1813760 TAAACTTTAT
Statistics
Matches: 369, Mismatches: 38, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
58 4 0.01
59 94 0.25
60 6 0.02
61 202 0.55
62 5 0.01
63 58 0.16
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (61 bp):
TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
Found at i:1813717 original size:120 final size:120
Alignment explanation
Indices: 1813285--1813759 Score: 605
Period size: 120 Copynumber: 3.9 Consensus size: 120
1813275 GCCTGCTCTC
* * * * **
1813285 TTTAAAGCCCACATAAGTTGATGGCAACTTCCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAA
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTTTTTCCTTTCAAA
* *
1813350 GCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
66 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * *
1813405 TTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCGTCAAAGAGCATGATGCCTTTTT-CTTTT
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA-G--GACTTTTTCCTTTC
*
1813469 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACACCTTTTCCT
63 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGG--ACACCTTTTCCT
* *
1813529 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTCCTTTGA
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG--ACTTTTTCCTTTCA
* * *
1813594 AAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGAC-GC-TTTCCT
64 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * **
1813649 TTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAGAGAGCAGGACGTTTTCTCCTCACA
1 TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-TTTT-TCCTTTCA
* * *
1813714 AAGCCCATACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAGGA
64 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGA
1813760 TAAACTTTAT
Statistics
Matches: 313, Mismatches: 32, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
118 2 0.01
119 3 0.01
120 141 0.45
121 3 0.01
122 49 0.16
123 11 0.04
124 104 0.33
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (120 bp):
TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTTTTTCCTTTCAAA
GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTTTTCCT
Found at i:1813854 original size:41 final size:41
Alignment explanation
Indices: 1813743--1813843 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
1813733 GCACCTTCTA
* * * * * *
1813743 GTCCCCAAAGAGCAGGATAAACTTTATTTGCTTTTCCTTTT
1 GTCCTCAAAGAGCATGACACACTTTATTTCCTTTTCCCTTT
*
1813784 GTCCTCAAAGAGTATGACACACTTTATTTCCTTTTCCCTTT
1 GTCCTCAAAGAGCATGACACACTTTATTTCCTTTTCCCTTT
1813825 GTCCTCAAAGAGCATGACA
1 GTCCTCAAAGAGCATGACA
1813844 TATTTAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (41 bp):
GTCCTCAAAGAGCATGACACACTTTATTTCCTTTTCCCTTT
Found at i:1813972 original size:74 final size:76
Alignment explanation
Indices: 1813815--1813989 Score: 203
Period size: 74 Copynumber: 2.3 Consensus size: 76
1813805 CTTTATTTCC
* * * **
1813815 TTTTCCCTTTGTCCTCAAAGAGCATGACATATTTAATTTCTTTCTTTTCCTTTATCCTCAAGGGT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACATATTTAATTTC-TTCTTTTCCCTTATCCTCAAAAGT
*
1813880 AGGATGTACTTA
65 AGAATGTACTTA
* * * * *
1813892 TTTTTCCTTTGTCCTCAAGGAGCAAGCCCTATTTCA-TTC-TCTTTTCCCTTGTCCTCGAAAAGT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACATATTTAATTTCTTCTTTTCCCTTATCCTC-AAAAGT
1813955 AGAATGTA-TTA
65 AGAATGTACTTA
*
1813966 TTTTTCCTTTGTCCTCAAATAGCA
1 TTTTTCCTTTGTCCTCAAAGAGCA
1813990 GGGTGCCTCT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
74 40 0.48
75 11 0.13
76 3 0.04
77 30 0.36
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.43
Consensus pattern (76 bp):
TTTTTCCTTTGTCCTCAAAGAGCAAGACATATTTAATTTCTTCTTTTCCCTTATCCTCAAAAGTA
GAATGTACTTA
Done.